nQuire: A statistical framework for ploidy estimation using NGS short-read data
nQuire implements a set of commands to estimate ploidy level of individuals from sp...idy variation is observed. Specifically, nQuire uses next-generation sequencing data to distinguish between diploi...1984 days ago
HipSTR: Haplotype inference and phasing for Short Tandem Repeats
HipSTR was specifically developed to deal with these errors in the hopes of ob...bsp;EM algorithm Mining candidate STR alleles from population-scale sequencing data Employing a specialized hidd...1949 days ago
DISTRUCT: a program for the graphical display of population structure
distruct is a program that can be used to graphically display results produced...or distruct from a Dos prompt in Windows. It will produce a figure using the data that are represented in the C...1932 days ago
OMTools: a software package for visualizing and processing optical mapping data
OMTools, an efficient and intuitive data processing and visualization suite to handle and explore large-scale o...mapping profiles. OMTools includes modules for visualization (OMView), data processing and simulation. Th...1928 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Scha...the following features: Good performance. On a MacBook Pro using Arabidopsis data, pseudochromosome constructio...1908 days ago
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VESPA: Very large-scale Evolutionary and Selective Pressure Analyses
find the resources we provide here useful in getting you set up to analyse and interpret your data. To reference VESPA: https://peerj.com/preprints/1895/ Documentation is now hosted on ReadTheDocs1843 days ago
Patterns: a modeling tool dedicated to biological network modeling
It is designed to work with patterned data. Famous examples of problems related to patterned data are: recovering signals in networks after a stimulation (cascade network reverse engineering), analysing periodic signals.1809 days ago
MSAProbs - Parallel and accurate multiple sequence alignment
MSAProbs is a well-established state-of-the-art multiple sequence alignment al...sing MPI to overcome high memory overhead barrier and achieve good parallel and data-size scalability.1825 days ago
TRITEX sequence assembly pipeline for Triticeae genomes
The pipeline is open-source and hosted in a public Bit...ng chromosome-conformation capture sequencing (Hi-C) data suitable for use with the pip...tes of 10X Genomics on how to generate Chromium data....1783 days ago